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qcumber 2.3.0-2
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Source: qcumber
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Andreas Tille <tille@debian.org>
Section: science
Priority: optional
Build-Depends: debhelper-compat (= 13),
               dh-python,
               python3-all,
               python3-setuptools,
               fastqc,
               trimmomatic,
               bowtie2,
               kraken,
               texlive-latex-base
Standards-Version: 4.5.1
Vcs-Browser: https://salsa.debian.org/med-team/qcumber
Vcs-Git: https://salsa.debian.org/med-team/qcumber.git
Homepage: https://gitlab.com/RKIBioinformaticsPipelines/QCumber
Rules-Requires-Root: no

Package: qcumber
Architecture: all
Depends: ${python3:Depends},
         ${misc:Depends},
         python3-jinja2,
         python3-matplotlib,
         python3-biopython,
         libjs-angularjs,
         libjs-bootstrap,
         libjs-d3,
         libjs-jquery,
         r-base-core,
         r-bioc-savr,
         r-cran-ggplot2,
         r-cran-quantreg,
         snakemake
Conflicts: qc-pipeline
Provides: qc-pipeline
Replaces: qc-pipeline
Description: quality control of genomic sequences
 QCPipeline is a tool for quality control. The workflow is as follows:
 .
  1. Quality control with FastQC
  2. Trim Reads with Trimmomatic
  3. Quality control of trimmed reads with FastQC
  4. Map reads against reference using bowtie2
  5. Classify reads with Kraken